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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTTGACACGGCTTTGAAAAACATAGGGATCGAAGAACGTGTTCCATATAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgtacatttctacaagtccttctcgcatagctctcttattgcgctccctctcttaatggttttactcatgtcacaaactcacaatatatgtgtatttgcag

Basic information

species Arabidopsis thaliana
transcript AT1G53310.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 4
CGTGTTGACACGGCTTTGAAAAACATAGGGATCGAAGAACGTGTTCCATATAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgt-----acatttctaca--------agtccttctcgc------------atagctctcttattgcgctccctctcttaatggttttactcatgtcacaa--actcacaatata---tgtgtatttgcag-------------------------
||||| || || || ||||| ||||| || ||||| || |||||||| || ||||||||  | ||||||||||| ||||||||||| || |||||||| |||     |||| ||||           || |||  | |            |||  |     |    |   ||||| |  ||| || |  | |  | || |  ||| |  | |||   ||| | | ||||                          
CGTGTGGATACTGCATTGAAGAACATCGGTATCGACGAGCGTGTTCCTTACAATGCTCCTCTTATTCAGTTCTCGTCTTGGATGGGAGGAGATCGTGATGgtgagaaacatatctattttgttgttggttcttagcactatgccttataaataattacagcacaatgaatcctctttagatg-ttgtctttaaattactaccacttaggagataccatgtctgtatgcactctaaatttcaaatgacctttacag

upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 4
CGTGTTGACACGGCTTTGAAAAACATAGGGATCGAAGAACGTGTTCCATATAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgtacatttctacaagtccttctcgcatagctctcttattgcgctccctctcttaatggttttactcatgtcacaaactcacaatatatgtgtatttgcag
||| | ||||| || ||||| ||||| || || || || |||||||| |||||||| ||  | ||||||||||||||||||||||| || || ||||| ||||       |  |   ||| |  | |   | |  |   |  ||    |  |||||  ||||   |||  ||| || | |                    
CGTCTGGACACTGCCTTGAAGAACATCGGAATTGATGAGCGTGTTCCTTATAATGCACCTCTCATTCAGTTCTCTTCTTGGATGGGAGGAGACCGTGATGgtatgcaa--aggatggcttttgacttctgtatagttcagttcttgtgcatttaataattttgtgcattgcaccaatttag-------------------

upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 4
CGTGTTGACACGGCTTTGAAAAACATAGGGATCGAAGAACGTGTTCCATATAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgtacat----ttctacaagtccttctcgcatagctctcttattgcgctccctctcttaatggttttactcatgtcacaaactcaca-atatatgtgtatttgcag---------
 | |||||||| ||| | || ||||| || ||  | || ||  | ||||||||||| ||  | |||||||| |||||||||||||||||||| ||||| |||||||    ||||      | |  | | ||||     ||  || |||   ||    ||  ||  | | || |  | ||   || | |||  | || | |              
AGGGTTGACACTGCTCTTAAGAACATTGGCATAAATGAGCGGTTGCCATATAATGCCCCTATCATTCAGTTTTCTTCTTGGATGGGTGGTGACCGTGATGgtacatagcattctctctcccttatttggatagtatatttgatgtgctgaatcatgcaactgtagttcacaagaaagaagtgcaaatataactctgaactgatgtccatgacag

upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv12s0028g02180.t01 (Vitis vinifera), 5'ss of exon 4
CGTGTTGACACGGCTTTGAAAAACATAGGGATCGAAGAACGTGTTCCATATAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgtacatttctacaagtccttctcgcatagctctcttat---tgcgctccctctcttaatggttttactcatgtcacaaactca---caatatatgtgtatttgcag---
|||||||| || |||||||| |||||||| || || ||||||||||| |||||||| ||  | |||||||| ||||||||||||||||| |||||||| |||| |          ||||| ||  | | | |  | ||       |||||||    | |  ||| |    ||  | | | |||      | |||   |  || ||    
CGTGTTGATACAGCTTTGAAGAACATAGGCATAGATGAACGTGTTCCTTATAATGCCCCCCTTATTCAGTTTTCTTCTTGGATGGGTGGGGATCGTGATGgtata---------atccttttcagacaacccattgatgagcatactccctcctgcatttctttcatagctgagaaagattcaatgttgtctatacattgtttcatttt

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|164078294|gb|ES000408.1|ES000408
EST:     TAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACG                         GTAACCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGC
genomic: TAATGCTCCATTGATTCAGTTCTCTTCTTGGATGGGTGGTGATCGTGACGgtacatttct ... gtatttgcagGTAACCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGC
EST: gi|124942687|gb|EL018934.1|EL018934
EST:     TCTTGGATGGGTGGTGATCGTGACG                         GTAACCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTA
genomic: TCTTGGATGGGTGGTGATCGTGACGgtacatttct ... gtatttgcagGTAACCCAAGGGTTACACCTGAAGTCACCAGAGATGTTTGCTTGTTAGCTA